J7_5HD1_004

3D structure

PDB id

5HD1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

AUGGUAAG*UACAAGC*GAACUG*CUAC*GCGCAG*CC*GU

Length

35 nucleotides

Bulged bases

5HD1|1|2A|G|554, 5HD1|1|2A|C|2042

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5HD1|1|2A|A|7
5HD1|1|2A|U|8
5HD1|1|2A|G|9
5HD1|1|2A|G|10
5HD1|1|2A|U|11
5HD1|1|2A|A|12
5HD1|1|2A|A|13
5HD1|1|2A|G|14
*
5HD1|1|2A|U|549
5HD1|1|2A|A|550
5HD1|1|2A|C|551
5HD1|1|2A|A|552
5HD1|1|2A|A|553
5HD1|1|2A|G|554
5HD1|1|2A|C|555
*
5HD1|1|2A|G|2039
5HD1|1|2A|A|2040
5HD1|1|2A|A|2041
5HD1|1|2A|C|2042
5HD1|1|2A|U|2043
5HD1|1|2A|G|2044
*
5HD1|1|2A|C|2061
5HD1|1|2A|U|2062
5HD1|1|2A|A|2063
5HD1|1|2A|C|2064
*
5HD1|1|2A|G|2636
5HD1|1|2A|C|2637
5HD1|1|2A|G|2638
5HD1|1|2A|C|2639
5HD1|1|2A|A|2640
5HD1|1|2A|G|2641
*
5HD1|1|2A|C|2800
5HD1|1|2A|C|2801
*
5HD1|1|2A|G|2902
5HD1|1|2A|U|2903

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22